nek-utils

A place to put my codes for Nek5000/NekRS.
All tools are under a separate directory or a git-repository with README.md description and with proper example(s).

This is still under-construction. Most codes are based on existed Nek5000 code. I will put proper reference and lisence later.

Some codes are experimental. Feel free to report issues and bugs.

Please use this as a dictionary to other repositories. I suggest to use the latest/release version from repositories. The submodules might not up-to-date.

Overview

• machines_list/

  • Main: A place to put all of my scripts on server/machines
  • Usage: Using scripts from a stranger is dangerous. Use them at your own risk.
  • TODO: Those scripts might not be up-to-date. Please contact me if you face issues.

• nekrsExamples/

  • Main: Extra examples for NekRS. Focusing on realization of Nek5000 functionality inside NekRS
  • Usage: See independent examples.

• usr_extra/

  • Main: This store those isolated *.f files that I usually use is to do some checks or post-processing
  • Usage: Include the file in .usr file. See the README.md for individual subroutines.
  • TODO: I just start collecting them together. Will remember to copy files here when I see them.

• outpost-select/

  • Main: A modified nek outpost allowing user to only dump the user-selected elements to reduce the size of the output file and the visualization cost.
  • Usage: independent file included from a nek user file.

• nek_connectivity/

  • Main: Extra nek tools for the connectivity file .con/.co2 such as n2to3 and binary-ascii translation.
  • Usage: [repo] Modified nek5000 tools.
  • TODO: Merge into n2to3

• SphereMesh/

  • Main: Mesh generator for pebble bed geometry.
  • Usage: [private repo] A workflow contains MATLAB code and nek mesh smoother.
  • TODO: WIP, to be released in future

• Tet2Hex_forNek/

  • Main: [repo] Mesh generator for arbitrary input points via tet-to-hex.
  • Usage: MATLAB code that generates nek meshes.
  • TODO: Add new features as a small subset of SphereMesh

• quick_fix_boundary_layers/

  • Main: fix the boundary layers for cylinder geometry
  • Usage: independent file included from a nek user file.
  • TODO: clean up, add general geometry

• del_elements/

  • Main: delete selected elements from mesh in nek
  • Usage: independent file included from a nek user file.
  • TODO: add feature like BC tracing and dump co2 files

• p3d2nek/

  • Main: converting plot3d mesh to nek meshes
  • Usage: [repo] MATLAB scripts
  • TODO: See the README

• OneSphere/:

  • Main: mesh generator for single pebble
  • Usage: [repo] MATLAB scripts

TODO:

• mesh smoother
• mesh refine / extrusion
• multi-box reader
• hpts example(s)
• web based doc
• gallery and showcases
• SEM codes (both MATLAB and Python)
• external storage for large files